I am running an Ab-initio reconstruction job. I first selected the best 2D classes from different particle tracers and extractions depending on the different major orientations.
I haven´t had any problems so far during this processing. I have run a remove duplicates in case that´s causing a problem. Also, the extraction box is 2x the diameter of the particle so It should be fine.
This is the error:
Traceback (most recent call last): File “cryosparc_master/cryosparc_compute/run.py”, line 129, in cryosparc_master.cryosparc_compute.run.main File “cryosparc_master/cryosparc_compute/jobs/abinit/run.py”, line 302, in cryosparc_master.cryosparc_compute.jobs.abinit.run.run_homo_abinit File “/opt/cryosparc/cryosparc_worker/cryosparc_compute/noise_model.py”, line 119, in get_noise_estimate assert n.all(n.isfinite(ret)) AssertionError
I have changed nothing but the Number of classes to 4. Some particles may appear bad due to poor micrographs. I was quite relaxed during curating. Can that be possible?
@baratachencho We would be interested in additional details. If you can, please can you retry variants of the failed job as described in Ab-Initio Reconstruction error - #3 by wtempel. For the test under 3. in that post, please try setting Number of Ab-Initio classes to 3.
Decrease the number of Ab-initio to 3 did not work; it crashed with the same error
Changing the noise model to White, on the contrary, It worked. Might you have an explanation for that? I was afraid that the picked particles where bad, from bad curate micrographs.